439 research outputs found
Azimuthal instability of the radial thermocapillary flow around a hot bead trapped at the water-air interface
We investigate the radial thermocapillary flow driven by a laser-heated
microbead in partial wetting at the water-air interface. Particular attention
is paid to the evolution of the convective flow patterns surrounding the hot
sphere as the latter is increasingly heated. The flow morphology is nearly
axisymmetric at low laser power P. Increasing P leads to symmetry breaking with
the onset of counter-rotating vortex pairs. The boundary condition at the
interface, close to no-slip in the low-P regime, turns about stress-free
between the vortex pairs in the high-P regime. These observations strongly
support the view that surface-active impurities are inevitably adsorbed on the
water surface where they form an elastic layer. The onset of vortex pairs is
the signature of a hydrodynamic instability in the layer response to the
centrifugal forced flow. Interestingly, our study paves the way for the design
of active colloids able to achieve high-speed self-propulsion via vortex pair
generation at a liquid interface
Free energy of colloidal particles at the surface of sessile drops
The influence of finite system size on the free energy of a spherical
particle floating at the surface of a sessile droplet is studied both
analytically and numerically. In the special case that the contact angle at the
substrate equals a capillary analogue of the method of images is
applied in order to calculate small deformations of the droplet shape if an
external force is applied to the particle. The type of boundary conditions for
the droplet shape at the substrate determines the sign of the capillary
monopole associated with the image particle. Therefore, the free energy of the
particle, which is proportional to the interaction energy of the original
particle with its image, can be of either sign, too. The analytic solutions,
given by the Green's function of the capillary equation, are constructed such
that the condition of the forces acting on the droplet being balanced and of
the volume constraint are fulfilled. Besides the known phenomena of attraction
of a particle to a free contact line and repulsion from a pinned one, we
observe a local free energy minimum for the particle being located at the drop
apex or at an intermediate angle, respectively. This peculiarity can be traced
back to a non-monotonic behavior of the Green's function, which reflects the
interplay between the deformations of the droplet shape and the volume
constraint.Comment: 24 pages, 19 figure
Identification of QTLs controlling gene expression networks defined a priori
BACKGROUND: Gene expression microarrays allow the quantification of transcript accumulation for many or all genes in a genome. This technology has been utilized for a range of investigations, from assessments of gene regulation in response to genetic or environmental fluctuation to global expression QTL (eQTL) analyses of natural variation. Current analysis techniques facilitate the statistical querying of individual genes to evaluate the significance of a change in response, also known as differential expression. Since genes are also known to respond as groups due to their membership in networks, effective approaches are needed to investigate transcriptome variation as related to gene network responses. RESULTS: We describe a statistical approach that is capable of assessing higher-order a priori defined gene network response, as measured by microarrays. This analysis detected significant network variation between two Arabidopsis thaliana accessions, Bay-0 and Shahdara. By extending this approach, we were able to identify eQTLs controlling network responses for 18 out of 20 a priori-defined gene networks in a recombinant inbred line population derived from accessions Bay-0 and Shahdara. CONCLUSION: This approach has the potential to be expanded to facilitate direct tests of the relationship between phenotypic trait and transcript genetic architecture. The use of a priori definitions for network eQTL identification has enormous potential for providing direction toward future eQTL analyses
Nematic-Wetted Colloids in the Isotropic Phase: Pairwise Interaction, Biaxiality and Defects
We calculate the interaction between two spherical colloidal particles
embedded in the isotropic phase of a nematogenic liquid. The surface of the
particles induces wetting nematic coronas that mediate an elastic interaction.
In the weak wetting regime, we obtain exact results for the interaction energy
and the texture, showing that defects and biaxiality arise, although they are
not topologically required. We evidence rich behaviors, including the
possibility of reversible colloidal aggregation and dispersion. Complex
anisotropic self-assembled phases might be formed in dense suspensions.Comment: 4 pages, 6 figure
Defect structures and torque on an elongated colloidal particle immersed in a liquid crystal host
Combining molecular dynamics and Monte Carlo simulation we study defect
structures around an elongated colloidal particle embedded in a nematic liquid
crystal host. By studying nematic ordering near the particle and the
disclination core region we are able to examine the defect core structure and
the difference between two simulation techniques. In addition, we also study
the torque on a particle tilted with respect to the director, and modification
of this torque when the particle is close to the cell wall
Expression variation in connected recombinant populations of Arabidopsis thaliana highlights distinct transcriptome architectures
<p>Abstract</p> <p>Background</p> <p>Expression traits can vary quantitatively between individuals and have a complex inheritance. Identification of the genetics underlying transcript variation can help in the understanding of phenotypic variation due to genetic factors regulating transcript abundance and shed light into divergence patterns. So far, only a limited number of studies have addressed this subject in Arabidopsis, with contrasting results due to dissimilar statistical power. Here, we present the transcriptome architecture in leaf tissue of two RIL sets obtained from a connected-cross design involving 3 commonly used accessions. We also present the transcriptome architecture observed in developing seeds of a third independent cross.</p> <p>Results</p> <p>The utilisation of the novel R/eqtl package (which goal is to automatize and extend functions from the R/qtl package) allowed us to map 4,290 and 6,534 eQTLs in the Cvi-0 × Col-0 and Bur-0 × Col-0 recombinant populations respectively. In agreement with previous studies, we observed a larger phenotypic variance explained by eQTLs in linkage with the controlled gene (potentially <it>cis</it>-acting), compared to distant loci (acting necessarily indirectly or in <it>trans</it>). Distant eQTLs hotspots were essentially not conserved between crosses, but instead, cross-specific. Accounting for confounding factors using a probabilistic approach (VBQTL) increased the mapping resolution and the number of significant associations. Moreover, using local eQTLs obtained from this approach, we detected evidence for a directional allelic effect in genes with related function, where significantly more eQTLs than expected by chance were up-regulated from one of the accessions. Primary experimental data, analysis parameters, eQTL results and visualisation of LOD score curves presented here are stored and accessible through the QTLstore service database <url>http://qtlstore.versailles.inra.fr/</url>.</p> <p>Conclusions</p> <p>Our results demonstrate the extensive diversity and moderately conserved eQTL landscape between crosses and validate the utilisation of expression traits to explore for candidates behind phenotypic variation among accessions. Furthermore, this stresses the need for a wider spectrum of diversity to fully understand expression trait variation within a species.</p
Direct measurements of the effects of salt and surfactant on interaction forces between colloidal particles at water-oil interfaces
The forces between colloidal particles at a decane-water interface, in the
presence of low concentrations of a monovalent salt (NaCl) and of the
surfactant sodium dodecylsulfate (SDS) in the aqueous subphase, have been
studied using laser tweezers. In the absence of electrolyte and surfactant,
particle interactions exhibit a long-range repulsion, yet the variation of the
interaction for different particle pairs is found to be considerable. Averaging
over several particle pairs was hence found to be necessary to obtain reliable
assessment of the effects of salt and surfactant. It has previously been
suggested that the repulsion is consistent with electrostatic interactions
between a small number of dissociated charges in the oil phase, leading to a
decay with distance to the power -4 and an absence of any effect of electrolyte
concentration. However, the present work demonstrates that increasing the
electrolyte concentration does yield, on average, a reduction of the magnitude
of the interaction force with electrolyte concentration. This implies that
charges on the water side also contribute significantly to the electrostatic
interactions. An increase in the concentration of SDS leads to a similar
decrease of the interaction force. Moreover the repulsion at fixed SDS
concentrations decreases over longer times. Finally, measurements of three-body
interactions provide insight into the anisotropic nature of the interactions.
The unique time-dependent and anisotropic interactions between particles at the
oil-water interface allow tailoring of the aggregation kinetics and structure
of the suspension structure.Comment: Submitted to Langmui
The scale of population structure in Arabidopsis thaliana
The population structure of an organism reflects its evolutionary history and influences its evolutionary trajectory. It constrains the combination of genetic diversity and reveals patterns of past gene flow. Understanding it is a prerequisite for detecting genomic regions under selection, predicting the effect of population disturbances, or modeling gene flow. This paper examines the detailed global population structure of Arabidopsis thaliana. Using a set of 5,707 plants collected from around the globe and genotyped at 149 SNPs, we show that while A. thaliana as a species self-fertilizes 97% of the time, there is considerable variation among local groups. This level of outcrossing greatly limits observed heterozygosity but is sufficient to generate considerable local haplotypic diversity. We also find that in its native Eurasian range A. thaliana exhibits continuous isolation by distance at every geographic scale without natural breaks corresponding to classical notions of populations. By contrast, in North America, where it exists as an exotic species, A. thaliana exhibits little or no population structure at a continental scale but local isolation by distance that extends hundreds of km. This suggests a pattern for the development of isolation by distance that can establish itself shortly after an organism fills a new habitat range. It also raises questions about the general applicability of many standard population genetics models. Any model based on discrete clusters of interchangeable individuals will be an uneasy fit to organisms like A. thaliana which exhibit continuous isolation by distance on many scales
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